Minoans with EHG ancestry & Mycenaeans without it!

I am going to post this bit also as an epilogue, I am getting tired of this argumentation and I am pretty sure everyone is.

So the way I see things are, we have a publication by Harvard where a certain methodology (open sourced) is used to analyze and dissect these thousand years human remains, their DNA extracted with varying levels of success and sequenced. The authors believe in the application of their hypothesis, because their process has included an imputation part where missing data are produced, and thus the end result is good enough, according to them, to achieve a level of reliability.

So far so good, obviously there's going to be criticisms about it (and they already are) when it comes to conclusions that involve other fields, like archaeology, linguistics, etc.

Now, on the other hand, we have the "other crowd" (for lack of a better term) that dispute these conclusions, not from an archeological standpoint mind you, but because their own toolset of choice (closed sourced, since it's a commercial product/service) paints a different picture.

Where's the problem with that? Well, this argument of theirs requires a leap of faith from the rest of us and trust on the intentions and infallibility of the authors of the methodological tool, and as such this would never even be recognized as a valid alternative in an actual academic research environment, since there has to be some sort of validation process, from third parties, of the toolset.

It's just pure madness and goes against every little step of the academic process, which is transparency and the ability to reproduce the results of the methodology.

That's all I have left to say on the matter.
 
Can you explain the toolset and methodology with which you reached your 'obvious' results? I don't see it. To save you time you could make the argument that the FST distances are the way they are because the Alalakh samples are of better quality than the Bulgaria_IA ones, and you'd be right since there is such bias when you run an FST distance computation, but then you'll have to admit that your results are also bogus, more probably than not, because they are extracted from those very same samples in the Reich dataset, haha:LOL:.

Actually, KapitanAndreevo samples have higher coverage than those of Alalakh, but both are overall acceptable coverage.

They cast me out early because I wasn't playing along with their 'we wuz' BS (mostly Greek related but also relative to what we are discussing now). They also got really angered and emotional when I challenged the validity of their precious PCA's results and their historical fantasy re-recreations about Medieval Greece and its continuity, just like you. But I'll take your word for it. No worries.

Ah, I get it now lol... all this anger toward Global25 is just because them, who used such a tool, "casted you out" of their group. Don't know the story, but it's probably just you blowing things out of proportion as usual. No offense man but the emotional or angered one is you, not me. I am not the one who writes in 3 different forums about how his ethnicity is not accepted by the rest of his countrymen.

Also, don't talk about "their" precious PCA, keep in mind that amateur calculators like Dodecad K12b are widely respected and used here. You are not just talking about Anthrogenica.

I never mentioned any modern day Urartian (which would be the Armenians, afaik). But, sure, what do you want to know about them? I am still catching up.

I never mentioned "modern-day ethnic" Thracians or even Syrians either.

It's right on the border. In a BA context it makes little difference. The whole thing with the "Levant" is a creation of your "East Med" buddies and their attempt to argue for some sort of historical continuity from the BA, in order to explain how Greeks (island), Italians (South), Maltese and Ashkenazi Jews all plot together, like there is some sort of historical connection. Let me say it once again, although I am sure it will fall on deaf areas, there is no continuity or connection, the positioning of the fabled "East Med" cluster on your PCA is entirely coincidental and a product of mostly Medieval historical processes, at least for Greece, not so much opinionated about the others. There's historical accords of continuous emptying and repopulation of that island geographical cluster in Greece.

No, even in the Bronze Age there was a difference. That area for example was linguistically Semitic.

I have never liked the term or grouping "East Med" and in fact I have never used it. This however typically includes not only Southern Italy and the Greek islands, but also pre-Turkish Western Anatolia and Cyprus.

You must have misunderstood and by a lot if you think the common vulgate on Anthrogenica is that there is continuity between Mycenaeans and modern Greeks.
 
2 things, because most of your post is personal attacks and petty squabble that your group is very fond of engaging in.


Actually, KapitanAndreevo samples have higher coverage than those of Alalakh, but both are overall acceptable coverage.


Do you mind presenting us with the exact coverage? You do have this information that you deemed acceptable, don't you? :p



Also, don't talk about "their" precious PCA, keep in mind that amateur calculators like Dodecad K12b are widely respected and used here. You are not just talking about Anthrogenica.


The difference that you are trying to obfuscate is that ADMIXTURE that K12b is based upon is OPEN SOURCED and available to everyone, unlike the stuff you peddle. Not the same thing.
 
Do you mind presenting us with the exact coverage? You do have this information that you deemed acceptable, don't you? :p

These are the samples included in the Global25 averages, which I used for the distances I posted earlier.

On average, KapitanAndreevo has more SNPs hit on autosomal targets (833,979) than Alalakh (531,928). The maximum number that can be reached here is 1,150,639.

PDre7KO.png


bN9MVet.png


The difference that you are trying to obfuscate is that ADMIXTURE that K12b is based upon is OPEN SOURCED and available to everyone, unlike the stuff you peddle. Not the same thing.

Again, I don't obfuscate anything and I don't belong to any sect or group. For some strange reason you associate me with other users with whom you have had squabbles. The only thing I may have in common with them is that we appreciate Global25, just as many here appreciate Dodecad K12b, end of story.

Anyway, Dodecad K12b does not show the Mycenaeans as closer to Alalakh than to Kapitan Andreevo.
 
These are the samples included in the Global25 averages, which I used for the distances I posted earlier.

On average, KapitanAndreevo has more SNPs hit on autosomal targets (833,979) than Alalakh (531,928). The maximum number that can be reached here is 1,150,639.


These numbers are meaningless because they solely exist in the ecosystem of g25. For all we know, someone pulled them out of their behind, there is no way to check, refer to my previous post.

Again, I don't obfuscate anything and I don't belong to any sect or group.

OK.
 
These numbers are meaningless because they solely exist in the ecosystem of g25. For all we know, someone pulled them out of their behind, there is no way to check, refer to my previous post.



OK.
Which numbers are you referring to?
The snp counts posted by Er monezza, or the distances produced by g25?
 
These numbers are meaningless because they solely exist in the ecosystem of g25. For all we know, someone pulled them out of their behind, there is no way to check, refer to my previous post.

No, they don't exist only in the Global25 ecosystem and I didn't pull them from my behind. You can find those numbers in these links:

https://reichdata.hms.harvard.edu/p...52.2/SHARE/public.dir/v52.2_1240K_public.anno

https://www.science.org/doi/suppl/1.../suppl_file/science.abm4247_data_s1_to_s5.zip
 
The Bulgarian samples you are referencing do not exist in the .anno link, click it yourself and ctrl+F look for it. I've checked it before I asked you my question, did you? :p

You seem very confident about it so I am asking in earnest. :p

Because they are new samples from the Southern Arc paper, no wonder they are not there :LOL:

You have to click on the second link and open the first Excel file.
 
The Bulgarian samples you are referencing do not exist in the .anno link, click it yourself and ctrl+F look for it. I've checked it before I asked you my question, did you? :p

You seem very confident about it so I am asking in earnest. :p
Of course they are not in the anno. Data in the anno doesn't include the latest Anatolia dataset. It may take another 5-6 months before they create the new full dataset with all recent data. However all the information for the latest individuals is provided in the excel sheet provided with publication.

Regarding missingness / coverage: 833,979 / 1,150,639. = 0.724

we have more than 70% or less than 30% missingness which is not bad at all.
 


From your source, sample/1240K coverage at targeted positions/1240K unique SNPs:

Code:
I20185  6.01248  925092
I20186  5.21775  909783
I20181  4.81375  892539
I20184  3.73335  855895
I20183  2.4066    840675
I20180  3.11957  831745

These do not correspond with your own table:



I assume that it's because your g25 is filtering those that don't match its template, which was exactly my original point.

Now let's see the Hatay_Alalakh_MLBA samples that I used on my FST distance run, I won't post the whole thing due to lack of time but people are welcome to cross reference my findings in the .anno file.

There's 25 of them from Skourtanioti (2020), about 8 of them hitting 1240K autosomal SNP targets in the range of 700K+ SNPs with the rest being around 500-600K and 6 of them being 200K and below. So by sheer volume alone, the sample grouping of Alalakh would be much better coverage for the FST run, which was exactly what I said in my previous post. Regarding the correlation with your own table, it's obviously not there, but that might be because you are not using the Skourtanioti group? Not sure.

Better luck next time? Don't feel bad, your platform is shit, that is all there's to it.
 
Regarding missingness / coverage: 833,979 / 1,150,639. = 0.724

we have more than 70% or less than 30% missingness which is not bad at all.


You mean 833979/1233013 = 67%?

I don't know, man ...
 
Code:
[SIZE=2]fst(prefix, pop1 = "Greece_BA_Mycenaean", pop2 = c("Bulgaria_KapitanAndreevo_IA", "Turkey_Alalakh_MLBA"), adjust_pseudohaploid = FALSE)
ℹ Reading allele frequencies from packedancestrymap files...
ℹ v52.2_1240K_public_PlusAddedSamples.geno has 17052 samples and 1233013 SNPs
ℹ Calculating allele frequencies from 39 samples in 3 populations
ℹ Expected size of allele frequency data: 168 MB
1233k SNPs read...
✔ 1233013 SNPs read in total
! 417123 SNPs remain after filtering. 270816 are polymorphic.
ℹ Allele frequency matrix for 417123 SNPs and 3 populations is 40 MB
ℹ Computing pairwise f2 for all SNPs and population pairs requires 240 MB RAM without splitting
ℹ Computing without splitting since 240 < 8000 (maxmem)...
ℹ Returning fst blocks
# A tibble: 2 × 4
  pop1                pop2                          est      se
  <chr>               <chr>                       <dbl>   <dbl>
1 Greece_BA_Mycenaean Bulgaria_KapitanAndreevo_IA 0.286 0.00148
2 Greece_BA_Mycenaean Turkey_Alalakh_MLBA         0.229 0.00109[/SIZE]

I feel this argument has ran its course.
 
There is excess of information. With more than 60% we still get a good picture .

Maybe, but nowhere near a mark for such absolutism that is portrayed by the peddlers.

Imputation wins, nevertheless.
 
From your source, sample/1240K coverage at targeted positions/1240K unique SNPs:

Code:
I20185  6.01248  925092
I20186  5.21775  909783
I20181  4.81375  892539
I20184  3.73335  855895
I20183  2.4066    840675
I20180  3.11957  831745

These do not correspond with your own table

If at least in addition to checking the second link right away before commenting, you had had the decency to open the data_s1 and data_s4 files, you would have seen that they matched.

Instead, no, you intentionally reported only data_s2 just because it showed different data from mine.

From data_s1

Code:
[TABLE="width: 261"]
[TR]
[TD]Master ID[/TD]
[TD]SNPs hit on autosomal targets[/TD]
[/TR]
[TR]
[TD]I20185[/TD]
[TD="align: right"]877161[/TD]
[/TR]
[TR]
[TD]I20186[/TD]
[TD="align: right"]863211[/TD]
[/TR]
[TR]
[TD]I20181[/TD]
[TD="align: right"]847418[/TD]
[/TR]
[TR]
[TD]I20184[/TD]
[TD="align: right"]824598[/TD]
[/TR]
[TR]
[TD]I20183[/TD]
[TD="align: right"]800488[/TD]
[/TR]
[TR]
[TD]I20180[/TD]
[TD="align: right"]790997[/TD]
[/TR]
[TR]
[TD]I19493[/TD]
[TD="align: right"]72901[/TD]
[/TR]
[TR]
[TD]I19490[/TD]
[TD="align: right"]49781[/TD]
[/TR]
[TR]
[TD]I19494[/TD]
[TD="align: right"]36227[/TD]
[/TR]
[TR]
[TD]I19497[/TD]
[TD="align: right"]26769[/TD]
[/TR]
[TR]
[TD]I19495[/TD]
[TD="align: right"]15293[/TD]
[/TR]
[/TABLE]

From data_s4

Code:
 [TABLE]
  [TR]
 [TD="width: 66"]Master ID[/TD]
 [TD="width: 113"]Autosomal_SNPs[/TD]
 [/TR]
 [TR]
 [TD]I20185[/TD]
 [TD="align: right"]877161[/TD]
 [/TR]
 [TR]
 [TD]I20186[/TD]
 [TD="align: right"]863211[/TD]
 [/TR]
 [TR]
 [TD]I20181[/TD]
 [TD="align: right"]847418[/TD]
 [/TR]
 [TR]
 [TD]I20184[/TD]
 [TD="align: right"]824598[/TD]
 [/TR]
 [TR]
 [TD]I20183[/TD]
 [TD="align: right"]800488[/TD]
 [/TR]
 [TR]
 [TD]I20180[/TD]
 [TD="align: right"]790997[/TD]
 [/TR]
 [TR]
 [TD]I19493[/TD]
 [TD="align: right"]72901[/TD]
 [/TR]
 [TR]
 [TD]I19490[/TD]
 [TD="align: right"]49781[/TD]
 [/TR]
 [TR]
 [TD]I19494[/TD]
 [TD="align: right"]36227[/TD]
 [/TR]
 [TR]
 [TD]I19497[/TD]
 [TD="align: right"]26769[/TD]
 [/TR]
 [TR]
 [TD]I19495[/TD]
 [TD="align: right"]15293[/TD]
 [/TR]
 [/TABLE]

I assume that it's because your g25 is filtering those that don't match its template, which was exactly my original point.

Now let's see the Hatay_Alalakh_MLBA samples that I used on my FST distance run, I won't post the whole thing due to lack of time but people are welcome to cross reference my findings in the .anno file.

There's 25 of them from Skourtanioti (2020), about 8 of them hitting 1240K autosomal SNP targets in the range of 700K+ SNPs with the rest being around 500-600K and 6 of them being 200K and below. So by sheer volume alone, the sample grouping of Alalakh would be much better coverage for the FST run, which was exactly what I said in my previous post. Regarding the correlation with your own table, it's obviously not there, but that might be because you are not using the Skourtanioti group? Not sure.

Better luck next time? Don't feel bad, your platform is shit, that is all there's to it.

Say that again, but without crying.

Even when you cherrypick the highest quality Mycenaeans, the highest quality KapitanAndreevo and the highest quality Alalakh samples, Mycenaeans will always be closer to KapitanAndreevo than to Alalakh.

Individuals

Code:
BGR_KapitanAndreevo_IA:I20180,0.119514,0.167562,0.009051,-0.064923,0.03693,-0.022311,0.002115,-0.006,0.009204,0.047199,0.003248,0.004646,-0.013082,0.004542,-0.021444,-0.018695,-0.004172,0.003801,0.005405,-0.011881,-0.011605,0.002473,-0.000863,-0.006266,-0.012334
BGR_KapitanAndreevo_IA:I20181,0.119514,0.157407,0.007165,-0.039083,0.028621,-0.023985,-0.003995,-0.003923,0.014726,0.04319,0.002923,0.008692,-0.0278,0.003165,-0.016422,0.003315,0.032074,0.008108,0.018603,-0.004252,-0.00836,-0.000742,-0.010106,0.002289,-0.016885
BGR_KapitanAndreevo_IA:I20183,0.120652,0.160454,0.010559,-0.041344,0.030775,-0.02259,0.00282,-0.003,0.017794,0.047017,0.003085,0.013488,-0.008771,-0.004954,-0.029587,0.005171,0.024903,0.003674,0.008673,-0.001,-0.004866,-0.00371,0.000739,0.005784,-0.011017
BGR_KapitanAndreevo_IA:I20184,0.114961,0.169593,0.007165,-0.057817,0.025543,-0.025937,0.000235,0.000692,0.015748,0.052484,-0.000974,0.009142,-0.024826,0.005092,-0.016694,-0.023071,0.001695,0.004054,0.009302,-0.014507,-0.016471,0.006306,-0.004314,0.00012,0.001317
BGR_KapitanAndreevo_IA:I20185,0.126344,0.158423,0.008674,-0.053295,0.040315,-0.034582,0.003995,-0.000231,0.005318,0.049204,0.004547,0.012889,-0.015015,-0.005367,-0.028366,-0.010342,0.013821,0.004307,0.010936,-0.01038,-0.009109,0.002349,0,0.000361,0.000239
BGR_KapitanAndreevo_IA:I20186,0.122929,0.155376,0.007542,-0.059755,0.031698,-0.025937,0.0047,-0.005077,0.009408,0.049204,-0.001624,0.009292,-0.020069,0.007432,-0.028637,-0.016706,-0.001043,0.000633,0.01433,-0.010505,-0.009733,0.001855,-0.005669,0.003976,-0.002515
GRC_Mycenaean_Palace_of_Nestor_BA:I13514,0.118376,0.159438,-0.000377,-0.054264,0.029852,-0.030957,-0.01081,-0.011999,0.008385,0.04647,0.009906,0.005695,-0.01219,0.002202,-0.016151,-0.009016,0.004694,-0.000887,0.007416,-0.01138,-0.004118,-0.000742,-0.000246,0.002289,-0.002395
GRC_Mycenaean_Palace_of_Nestor_BA:I13518,0.1161,0.158423,-0.006034,-0.060724,0.023389,-0.027331,0.001645,-0.007384,0.011249,0.046835,0.006983,0.010641,-0.022299,0.000138,-0.025787,-0.004375,0.014473,-0.00266,0.010936,-0.002751,-0.015098,0.008532,0.001972,-0.00012,-0.001317
TUR_Alalakh_MLBA:ALA013,0.093335,0.151314,-0.061471,-0.090117,-0.010463,-0.028168,-0.0047,-0.006923,-0.003477,0.017859,0.006496,-0.003147,0.008474,0.003165,-0.014658,0.003713,0.00339,0.003041,0.004399,-0.007128,-0.000624,0.006306,0.000863,-0.006748,0.000958
TUR_Alalakh_MLBA:ALA026,0.08992,0.151314,-0.062602,-0.089794,-0.016003,-0.03514,-0.00376,-0.005307,0.003886,0.011845,0.012666,-0.012139,0.01442,0.006606,-0.011401,0.001061,-0.009779,0.007981,0.007165,0.000875,0.004118,0.006059,0,0.003976,0.005868
TUR_Alalakh_MLBA:ALA028,0.104717,0.15436,-0.062225,-0.095285,-0.006155,-0.035698,0.000235,-0.006231,-0.001023,0.024784,0.013803,-0.004946,0.000149,-0.003578,-0.016015,0.019491,0.020861,0.004181,0.007416,0.001,0.000499,0.002597,-0.006532,0.010122,-0.000359
TUR_Alalakh_MLBA:ALA034,0.095611,0.148267,-0.065242,-0.085595,-0.018157,-0.036814,-0.00047,-0.006,-0.001636,0.016948,0.00341,-0.005395,0.009514,0.006881,-0.009365,0.012729,0.009388,0.004941,0.008422,-0.011631,0.006489,0.010016,-0.001849,-0.011206,-0.001078
TUR_Alalakh_MLBA:ALA120,0.095611,0.156392,-0.057699,-0.093347,-0.011387,-0.025379,0,-0.006,-0.001432,0.011116,0.013478,-0.002548,0.006987,0.003716,-0.007465,-0.014585,-0.012386,-0.003927,0.00352,-0.006003,0.006863,0.006554,0.002835,-0.008073,0.001557
TUR_Alalakh_MLBA:ALA130,0.094473,0.139128,-0.067505,-0.10336,-0.024004,-0.026216,-0.004465,-0.006692,-0.00859,0.006196,0.010393,-0.008093,0.013379,0.001789,-0.006922,0.014054,-0.002868,-0.003041,-0.003897,-0.007253,0.004991,-0.000124,-0.00419,-0.00482,-0.002874
TUR_Alalakh_MLBA:ALA135,0.094473,0.148267,-0.058454,-0.093993,-0.018773,-0.034582,-0.00282,-0.004615,0.003272,0.014761,0.010555,0.001499,0.00996,-0.003028,-0.008415,0.005569,0.00013,0.00152,0.003897,-0.000875,0.007736,0.004822,-0.008011,0.003012,0.002515

Averages

Code:
BGR_KapitanAndreevo_IA,0.12065233,0.16146917,0.0083593333,-0.052702833,0.032313667,-0.025890333,0.001645,-0.0029231667,0.012033,0.048049667,0.0018675,0.0096915,-0.0182605,0.0016516667,-0.023525,-0.010054667,0.011213,0.0040961667,0.011208167,-0.0087541667,-0.010024,0.0014218333,-0.0033688333,0.001044,-0.0068658333
GRC_Mycenaean_Palace_of_Nestor_BA,0.117238,0.1589305,-0.0032055,-0.057494,0.0266205,-0.029144,-0.0045825,-0.0096915,0.009817,0.0466525,0.0084445,0.008168,-0.0172445,0.00117,-0.020969,-0.0066955,0.0095835,-0.0017735,0.009176,-0.0070655,-0.009608,0.003895,0.000863,0.0010845,-0.001856
TUR_Alalakh_MLBA,0.095448571,0.14986314,-0.062171143,-0.093070143,-0.014991714,-0.031713857,-0.0022828571,-0.0059668571,-0.0012857143,0.014787,0.010114429,-0.004967,0.0089832857,0.0022215714,-0.010605857,0.0060045714,0.001248,0.0020994286,0.0044174286,-0.0044307143,0.004296,0.0051757143,-0.002412,-0.0019624286,0.000941

Distances

Code:
[TABLE="class: distances"]
[TR]
[TH]Distance to:[/TH]
[TH]GRC_Mycenaean_Palace_of_Nestor_BA[/TH]
[/TR]
[TR]
[TD]0.02161720[/TD]
[TD]BGR_KapitanAndreevo_IA[/TD]
[/TR]
[TR]
[TD]0.09831324[/TD]
[TD]TUR_Alalakh_MLBA[/TD]
[/TR]
[/TABLE]
 
Coverage is not the only factor influencing the results. There's also:
-Overlap(for example, both samples could have 70% coverage, but one has more "holes" at chromosome 1, and the other at chr 2)

-number of samples (e.g. there's ~20 Alalakh samples and only 4 Mycenaeans)

-different testing technologies (1240k, sg, illumina, etc.)

So even if both Alalakh and Mycenaeans have decent coverage, their f2/fst results could still be off.
 
If at least in addition to checking the second link right away before commenting, you had had the decency to open the data_s1 and data_s4 files, you would have seen that they matched.

Instead, no, you intentionally reported only data_s2 just because it showed different data from mine.

From data_s1

I posted the 1240K SNPs, what you linked might be the ADMIXTURE related coverage, since the title mentions only "autosomal targets"?

Anyways, my point still stands because you can use the count_snps command in admixtools to check the total of all SNPs across all blocks for your chosen populations.

Code:
[SIZE=2]mypops = c("Turkey_Alalakh_MLBA", "Greece_BA_Mycenaean")[/SIZE]
[SIZE=2]> f2_blocks = f2_from_geno(prefix, pops = mypops)[/SIZE]
[SIZE=2]ℹ Reading allele frequencies from packedancestrymap files...[/SIZE]
[SIZE=2]ℹ v52.2_1240K_public_PlusAddedSamples.geno has 17052 samples and 1233013 SNPs[/SIZE]
[SIZE=2]ℹ Calculating allele frequencies from 49 samples in 2 populations[/SIZE]
[SIZE=2]ℹ Expected size of allele frequency data: 158 MB[/SIZE]
[SIZE=2]1233k SNPs read...[/SIZE]
[SIZE=2]✔ 1233013 SNPs read in total[/SIZE]
[SIZE=2]! 1070540 SNPs remain after filtering. 726914 are polymorphic.[/SIZE]
[SIZE=2]ℹ Allele frequency matrix for 1070540 SNPs and 2 populations is 94 MB[/SIZE]
[SIZE=2]ℹ Computing pairwise f2 for all SNPs and population pairs requires 377 MB RAM without splitting[/SIZE]
[SIZE=2]ℹ Computing without splitting since 377 < 8000 (maxmem)...[/SIZE]
[SIZE=2]ℹ Returning f2 blocks[/SIZE]
[SIZE=2]> count_snps(f2_blocks)[/SIZE]
[SIZE=2][1] [B]726914[/B][/SIZE]

And:
Code:
[SIZE=2]mypops = c("Bulgaria_KapitanAndreevo_IA", "Greece_BA_Mycenaean")[/SIZE]
[SIZE=2]> f2_blocks = f2_from_geno(prefix, pops = mypops)[/SIZE]
[SIZE=2]ℹ Reading allele frequencies from packedancestrymap files...[/SIZE]
[SIZE=2]ℹ v52.2_1240K_public_PlusAddedSamples.geno has 17052 samples and 1233013 SNPs[/SIZE]
[SIZE=2]ℹ Calculating allele frequencies from 35 samples in 2 populations[/SIZE]
[SIZE=2]ℹ Expected size of allele frequency data: 158 MB[/SIZE]
[SIZE=2]1233k SNPs read...[/SIZE]
[SIZE=2]✔ 1233013 SNPs read in total[/SIZE]
[SIZE=2]! 1042354 SNPs remain after filtering. 620477 are polymorphic.[/SIZE]
[SIZE=2]ℹ Allele frequency matrix for 1042354 SNPs and 2 populations is 92 MB[/SIZE]
[SIZE=2]ℹ Computing pairwise f2 for all SNPs and population pairs requires 367 MB RAM without splitting[/SIZE]
[SIZE=2]ℹ Computing without splitting since 367 < 8000 (maxmem)...[/SIZE]
[SIZE=2]ℹ Returning f2 blocks[/SIZE]
[SIZE=2]> count_snps(f2_blocks)[/SIZE]
[SIZE=2][1] [B]620477
[/B][/SIZE]
OK? Are we good now?


Say that again, but without crying.

Even when you cherrypick the highest quality Mycenaeans


Nice one, are you sure you are not projecting?

I didn't cherrypick anything I used the whole group, you are free to recreate the result instead of seething like that.

But there's no helping your kind, is there?

The Lazaridis paper delivered a blow I don't think you can recover from ...

Now continue your crusade on disproving Harvard on the intrawebs, it'd be very entertaining if it wasn't so sad.
 
I posted the 1240K SNPs, what you linked might be the ADMIXTURE related coverage, since the title mentions only "autosomal targets"?

What I linked (besides being literally the first file that comes out when you download and extract the .zip file) sticks to the column in David Reich's .anno file called "SNPs hit on autosomal targets (Computed using easystats on 1240k snpset)", whose limit is 1,150,639 and not 1,233,013.

You are free to recreate the result instead of seething like that.

I honestly don't care about that.

The Lazaridis paper delivered a blow I don't think you can recover from ...

I have to agree with you, after reading about PIE from West Asia I was hospitalized for excessive laughter and I don't think I will ever recover :LOL:

Now continue your crusade on disproving Harvard on the intrawebs, it'd be very entertaining if it wasn't so sad.

Lol, here we are discussing whether the Mycenaeans are more akin to Alalakh or KapitanAndreevo. The sex of angels basically. Citing Harvard at random does not give you authority.

Anyway, for me the discussion can end here.
 
What I linked (besides being literally the first file that comes out when you download and extract the .zip file) sticks to the column in David Reich's .anno file called "SNPs hit on autosomal targets (Computed using easystats on 1240k snpset)", whose limit is 1,150,639 and not 1,233,013.

Yes, 1.150.369 is the total referring to your closed g25 ecosystem, 1.233.013 (1240K) is the total qpAdm uses.

. <- my point.


. <- your head.

Lol, here we are discussing whether the Mycenaeans are more akin to Alalakh or KapitanAndreevo. The sex of angels basically. Citing Harvard at random does not give you authority.

Dude, calm down, I didn't say they were my findings. I am not claiming any glory for myself or any authority. :beat_brick:

I was pointing out the absurdity of you claiming you have debunked Harvard with the use of your child's play pet project equivalent.

But I am glad we decided that 726914 > 620477.

This is the part now where you run to your discord and paste me a random qpAdm with a failed p-value, that my Cypriot friend's made. :LOL:

If only you put this much zealotry in something productive rather than defending fables.
 

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